Changes

From Genome Analysis Wiki
Jump to navigationJump to search
57 bytes added ,  22:03, 19 November 2009
m
Line 81: Line 81:  
== Choose an appropriate size for word index ==
 
== Choose an appropriate size for word index ==
   −
Size for word index is sensitive to mapping performance. A small size of word index will increase the number of calculation cycles for a single read and duplications of a single word. On the other side, a big size will require much larger memory. Please also keep in mind that appropriate size is related to your hardware architecture. For practically purpose, we found size of 15 is optimal.
+
The length of the index words influences mapping performance.  Using short  index words increases the number of calculation cycles for a single read and duplications of a single word.  On the other side, long index words require much larger memory.  Please also keep in mind that appropriate size is related to your hardware architecture.  For practical purposes, with at least 20 Gb of RAM, we find that a size of 15 is optimal.
    
= A Complete Example =
 
= A Complete Example =
29

edits

Navigation menu